New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	6000959 =	24 (1.030)	4 (0.230)	4/194	NT	20.4%	intergenic (+10/+99)	PP_5256/amaA	cyclic nucleotide‑binding protein/L‑pipecolate oxidase
	?	NC_002947	6001053 =	13 (0.730)					intergenic (+104/+5)	PP_5256/amaA	cyclic nucleotide‑binding protein/L‑pipecolate oxidase

AATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGA  >  NC_002947/6000910‑6001194                                                                                                                                                |                                                                                                                                              gatgaagaagGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGTGGGTAAAACCGCGCCTACAAGTTATGCGCCGCCTGAGAGGGCTGCGGAGAACCTGTAGGAGCTTGGTTACCCGCGGAGAGGCCACTAGtt                                                                                                                                         >  1:243344/5‑150 (MQ=255)     aagaagGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGGTCCTACATGTAGTTGACGGCCTGATAGGGCGGTGGGGAACCGGTAGTGGCGGGGTTACGCGCGGAGGGGCCAGTACTTacca                                                                                                                                     >  2:129871/1‑148 (MQ=25)                            gttgCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACt                                                                                                                                          <  2:156894/122‑1 (MQ=255)                            gttgCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACt                                                                                                                                          >  1:156894/1‑122 (MQ=255)                            gttgCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCcg                                                                                                              >  1:126464/1‑150 (MQ=255)                                      ctcacttgtgCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAg                                                                                                    <  1:340750/144‑1 (MQ=255)                                       gAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGc                                                                                                   <  2:243344/150‑1 (MQ=255)                                         gCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGa                                                                                                 <  2:419943/150‑1 (MQ=255)                                          ccTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGAACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCgca                                                                                                >  1:190372/1‑148 (MQ=255)                                                     CTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGt                                                                                                           <  1:351608‑M1/128‑1 (MQ=255)                                                     CTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGt                                                                                                           >  2:351608‑M1/1‑128 (MQ=255)                                                      TCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCa                                                                                    <  2:539090‑M1/150‑1 (MQ=255)                                                      TCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCa                                                                                    <  1:103902‑M1/150‑1 (MQ=255)                                                              GGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAgg                                                                                                                        <  1:315984‑M1/106‑1 (MQ=255)                                                              GGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAgg                                                                                                                        >  2:315984‑M1/1‑106 (MQ=255)                                                              GGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGc                                                                            <  2:220238‑M1/150‑1 (MQ=255)                                                               GTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGa                                                                                >  1:108428‑M1/1‑145 (MQ=255)                                                               GTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGa                                                                                <  2:108428‑M1/145‑1 (MQ=255)                                                                      CGCTCATAAAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAAACTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGAAAAAAAAAAAAAAACCGGACTCATAGAACGCTGTCCGCa                                                                    >  2:190372‑M1/1‑150 (MQ=255)                                                                             acaggttcaccacagccctctcaggcggtgcactacttgtaggagcgggtttacccgcgaagaggccAGTACGTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAgg                                                             >  1:349979‑M2/68‑150 (MQ=255)                                                                                 gttcaccacagccctctcaggcggtgcactacttgtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGc                                                                                                   >  2:243880‑M2/64‑108 (MQ=255)                                                                                 gttcaccacagccctctcaggcggtgcactacttgtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGc                                                                                                   <  1:243880‑M2/45‑1 (MQ=255)                                                                                   tcaccacagccctctcaggcggtgcactacttgtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCt                                                       <  2:349979‑M2/89‑1 (MQ=255)                                                                                          cGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAg                                                              <  1:444024/136‑1 (MQ=255)                                                                                          cGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAg                                                              >  2:444024/1‑136 (MQ=255)                                                                                             cTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTc                                             >  2:53730/1‑150 (MQ=255)                                                                                                   gggCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGc                                       <  2:207638/150‑1 (MQ=255)                                                                                                                                       gaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTg   <  1:539090‑M2/141‑1 (MQ=255)                                                                                                                                        aagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGa  <  2:126464‑M2/142‑1 (MQ=255)                                                                                                                                                |                                                                                                                                              AATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGA  >  NC_002947/6000910‑6001194

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.